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Report for CCDS20147.2 (current version)

CCDS Status Species Chrom. Gene CCDS Release NCBI Annotation Release Ensembl Annotation Release Links
20147.2 Public Mus musculus 6 Hoxa10 23 108 98 CCDS HistoryNCBI Gene:15395Re-query CCDS DB by CCDS ID:20147.2Re-query CCDS DB by GeneID:15395See the combined annotation on chromosome 6 in Sequence Viewer

Public Note for CCDS 20147.1
The coding region has been updated to extend the N-terminus based on the presence of an upstream translation start codon that is well-conserved across vertebrate species. An alternative downstream start codon, which has been represented historically and is consistent with that used by other Hox gene family members, would reduce the protein length by 17 aa. No experimental evidence exists regarding which start codon is preferentially used.

Public since: CCDS release 2, NCBI annotation release 36.1, Ensembl annotation release 39

Review status: Reviewed (by RefSeq, Havana and CCDS collaboration)

Sequence IDs included in CCDS 20147.2

Original Current Source Nucleotide ID Protein ID Status in CCDS Seq. Status Links
Original member Current member EBI ENSMUST00000125581.1 ENSMUSP00000120276.1 Accepted alive Link to Ensembl Transcript Viewer:ENSMUST00000125581.1Link to Ensembl Protein Viewer:ENSMUSP00000120276.1Re-query CCDS DB by Nucleotide ID:ENSMUST00000125581Re-query CCDS DB by Protein ID:ENSMUSP00000120276
Original member NCBI NM_008263.3 NP_032289.2 Updated not alive Link to Nucleotide Sequence:NM_008263.3Link to Protein Sequence:NP_032289.2Re-query CCDS DB by Nucleotide ID:NM_008263Re-query CCDS DB by Protein ID:NP_032289
Current member NCBI NM_008263.4 NP_032289.2 Accepted alive Link to Nucleotide Sequence:NM_008263.4Link to Protein Sequence:NP_032289.2Re-query CCDS DB by Nucleotide ID:NM_008263Re-query CCDS DB by Protein ID:NP_032289Link to BLAST:NP_032289.2

RefSeq Length Related UniProtKB/SwissProt Length Identity Gaps Mismatches
NP_032289.2 416 P31310-1 416 100% 0 0

Chromosomal Locations for CCDS 20147.2

Assembly GRCm38.p6 (GCF_000001635.26)

On '-' strand of Chromosome 6 (NC_000072.6)
Genome Browser links: Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6See the combined annotation on chromosome 6 in Sequence Viewer

Chromosome Start Stop Links
6 52232506 52232780 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6
6 52233959 52234934 Link to NCBI NucleotideLink to UCSC Genome Browser on chromosome 6Link to Ensembl Genome Browser on chromosome 6

CCDS Sequence Data
Blue highlighting indicates alternating exons.
Red highlighting indicates amino acids encoded across a splice junction.
 
Mouse over the nucleotide or protein sequence below and click on the highlighted codon or residue to select the pair.

Nucleotide Sequence (1251 nt):
ATGTCAGCCAGAAAGGGCTATCTGCTCCCTTCGCCAAATTATCCCACAACAATGTCATGCTCGGAGAGCC
CTGCCGCGAACTCCTTTTTGGTCGACTCGCTCATCAGCTCAGGCAGAGGCGAGGCTGGTGTTGGTGGCGG
TAGCGCGGGGGGCGGTGGAGGTGGCTACTACGCCCACGGTGGGGTCTACCTGCCGCCTGCCAGCGACCTG
CCCTACGGGCTGCAAAGCTGCGGGCTCTTCCCCGCGCTGGGCAGCAAGCGTAATGAAGCGCCGTCGCCCG
GAGGCGGTGGCGGTGGTGGCAGCGGGGGCCTGGGTCCTGGGACGCATGGCTACGCGCCCGCGCCCCTAGA
CCTGTGGCTGGACGCGCCCCGCTCCTGCCGGATGGAGCCGCCCGACGGGCCGCCGCCACCGCAGCCACAA
CCCCAGCAGCAGCAGCAGCAGCCGCCGCCGCCCCCGCCGCAGCCACCTCAACCCCAGCCACAGGCCACTT
CGTGTTCTTTTGCGCAGAACATCAAAGAAGAGAGCTCCTACTGCCTCTACGATGCTGCGGACAAATGCCC
CAAGGGCTCGGCCGCCGCTGATCTGGCCCCTTTCCCGCGGGGCCCGCCGCCCGACGGCTGCGCCCTGGGC
GCCTCCAGCGGAGTGCCAGTACCCGGCTACTTCCGCCTGTCGCAGGCCTACGGCACGGCCAAGGGCTTCG
GCAGTGGCGGCGGCGGCACGCAGCAGCTCGCTAGTCCCTTTCCTGCGCAGCCCCCGGGGCGCGGTTTCGA
CCCGCCGCCCGCACTGGCCTCTGGCTCGACCGAGGCAGCCGGGAAGGAGCGAGTCCTAGACTCCACGCCA
CCACCCACTCTGGTTTGCACCGGTGGCGGCGGCTCGCAGGGCGACGAGGAGGCACACGCGTCATCCTCGG
CGGCTGAGGAGCTGTCTCCAGCCCCTTCAGAAAACAGTAAAGCTTCGCCGGAGAAGGACTCCCTGGGCAG
TTCCAAAGGCGAAAATGCAGCCAACTGGCTCACAGCAAAGAGCGGCCGGAAGAAACGCTGCCCTTACACG
AAGCACCAGACGCTGGAGCTGGAGAAGGAGTTTCTATTCAACATGTACCTTACTCGAGAGCGGCGCCTAG
AGATCAGCCGTAGCGTCCACCTCACGGACAGACAAGTGAAAATCTGGTTTCAGAATCGCAGGATGAAACT
GAAGAAAATGAACCGAGAAAACCGAATCCGGGAGCTCACAGCCAACTTTAATTTTTCCTGA

Translation (416 aa):
MSARKGYLLPSPNYPTTMSCSESPAANSFLVDSLISSGRGEAGVGGGSAGGGGGGYYAHGGVYLPPASDL
PYGLQSCGLFPALGSKRNEAPSPGGGGGGGSGGLGPGTHGYAPAPLDLWLDAPRSCRMEPPDGPPPPQPQ
PQQQQQQPPPPPPQPPQPQPQATSCSFAQNIKEESSYCLYDAADKCPKGSAAADLAPFPRGPPPDGCALG
ASSGVPVPGYFRLSQAYGTAKGFGSGGGGTQQLASPFPAQPPGRGFDPPPALASGSTEAAGKERVLDSTP
PPTLVCTGGGGSQGDEEAHASSSAAEELSPAPSENSKASPEKDSLGSSKGENAANWLTAKSGRKKRCPYT
KHQTLELEKEFLFNMYLTRERRLEISRSVHLTDRQVKIWFQNRRMKLKKMNRENRIRELTANFNFS


Links Key
 Links to:   History report
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 Re-query CCDS DB by:   CCDS ID
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 Genome Browser Links:   Ensembl Genome Browser
  NCBI Sequence Viewer
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